Cell line RNA
RNA was isolated using the using Qiagen Rneasy Mini Kit (74106). The RNA integrity number (RIN) ranged between 8.84-10 in the samples. RNA samples were sequenced using the Novaseq S4 sequencing system (150 bp paired-end reads) with a depth of over 300 million reads in each case. RNA-seq raw reads were trimmed using the cutadapt tool, followed by alignment to the hg19 genome version using the STAR aligner (v2.7.0) and gencode V19 annotation.